YRC Public Data Repository - Protein Structure Prediction

Protein:	SME1
Organism:	Saccharomyces cerevisiae
Length:	94 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for SME1.

Description	E-value	Query Range	Subject Range
gi\|190407477 - gi\|190407477\|gb\|EDV10744.1\| small nuclear ribonucleoprotein E [Saccharomyces cerevisiae RM11-1a] gi\|151945777 - gi\|151945777\|gb\|EDN64018.1\| Sm E [Saccharomyces cerevisiae YJM789] SME1 - Core Sm protein Sm E; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Smx3p, and ... RUXE_YEAST - Small nuclear ribonucleoprotein E OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SME1 P...	4.0E-19	[1..94]	[1..94]
gi\|74005840 - gi\|74005840\|ref\|XP_536093.2\| PREDICTED: similar to small nuclear ribonucleoprotein E [Canis familiar... gi\|109018742 - gi\|109018742\|ref\|XP_001099697.1\| PREDICTED: similar to small nuclear ribonucleoprotein E isoform 2 [... RUXE_BOVIN - Small nuclear ribonucleoprotein E OS=Bos taurus GN=SNRPE PE=3 SV=1 gi\|208967438 - gi\|208967438\|dbj\|BAG73733.1\| small nuclear ribonucleoprotein polypeptide E [synthetic construct] SNRPE - small nuclear ribonucleoprotein polypeptide E HGNC:11161\|MIM:1... - nuclear ribonucleoprotein polypeptide E RUXE_MOUSE - Small nuclear ribonucleoprotein E OS=Mus musculus GN=Snrpe PE=1 SV=1 RUXE_CHICK - Small nuclear ribonucleoprotein E OS=Gallus gallus GN=SNRPE PE=3 SV=1 gi\|126306697 - gi\|126306697\|ref\|XP_001364976.1\| PREDICTED: similar to solute carrier family 45, member 3, [Monodelp... gi\|114572016 - gi\|114572016\|ref\|XP_001158544.1\| PREDICTED: hypothetical protein isoform 3 [Pan troglodytes] gi\|149058608, gi... - ref\|XP_341121.1\| similar to small nuclear ribonucleoprotein E [Rattus norvegicus], gi\|149058608\|gb\|... tr\|G3HQB7\|G3HQB7... - Small nuclear ribonucleoprotein E OS=Cricetulus griseus GN=I79_013014 PE=4 SV=1	4.0E-18	[3..93]	[7..90]
snr-6 - status:Confirmed UniProt:Q9XTU6 protein_id:CAB11551.1	3.0E-17	[1..93]	[1..86]
gi\|220956962, gi... - gi\|220956962\|gb\|ACL91024.1\| CG18591-PA [synthetic construct], gi\|220947662\|gb\|ACL86374.1\| CG18591-PA... CG18591-PA - This gene is referred to in FlyBase by the symbol Dmel\CG18591 (CG18591, FBgn0031962). It is a prote...	1.0E-16	[3..91]	[6..87]
gi\|3142634 - gi\|3142634\|gb\|AAC78612.1\| small nuclear ribonucleoprotein N [Mus musculus]	1.0E-16	[10..91]	[2..81]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNKVKTKAM VPPINCIFNF LQQQTPVTIW LFEQIGIRIK GKIVGFDEFM NVVIDEAVEI  60
   61 PVNSADGKED VEKGTPLGKI LLKGDNITLI TSAD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	15.0
Match:	1jriA_
Description:	Archaeal homoheptameric Sm protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
	9.36615441177233	bayes_pls_golite062009
RNA binding	5.81718051012035	bayes_pls_golite062009
nucleic acid binding	2.69031444148163	bayes_pls_golite062009
mRNA binding	2.57166143288861	bayes_pls_golite062009
binding	2.44117021254507	bayes_pls_golite062009
protein binding	0.318488892917007	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: